Enterprise Payroll Software for Complex Workforce Needs

When your business is large and diverse, off-the-shelf payroll systems often fall short. Microkeeper’s enterprise payroll software is designed specifically for Australian companies with complex requirements, high employee volumes, and the need for tailored solutions.

Whether you’re managing thousands of staff across multiple locations, navigating layered EBAs and awards, or seeking to automate custom workflows, Microkeeper offers a single integrated platform that scales with you.

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Solving workforce challenges with enterprise payroll

Large organisations face a unique set of payroll and workforce hurdles. Microkeeper helps you overcome them with precision, flexibility, and automation.

Challenge: Unique business requirements

No two enterprises are the same. From custom payroll rules to complex workflows and reporting structures, most platforms struggle to adapt. 

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Solution: Tailored payroll applications

Microkeeper allows configuration of payroll rules that reflect your enterprise’s specific needs. From automated deductions to rule-based earnings or super calculations, we make your logic executable. 

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Challenge: Complex EBAs and award conditions

Managing multiple EBAs, modern awards, and pay scales across various departments or states is time-consuming and error-prone. 

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Solution: Multi-award and EBA support

Our platform handles multiple award interpretations simultaneously. Microkeeper helps reduce compliance risks and payroll overhead with automation that applies the correct conditions by role, location, or roster.

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Challenge: Large workforce management

Hundreds to thousands of employees require a system that can handle scale, without performance issues or user friction.

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Solution: Unlimited employee capacity

Whether you’re paying 500 or 15,000 staff, Microkeeper is built to perform at scale. Process by pay runs efficiently, onboard in bulk, and track data across large teams with confidence.

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Challenge: Disconnected systems and manual tasks

Using different platforms for rostering, timesheets, onboarding, and payroll increases errors and slows down admin teams.

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Solution: All-in-one system

Microkeeper combines payroll, rostering, onboarding, certificates, timesheets, and reporting in a single platform, built and supported in Australia.

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Enterprise-ready features designed to empower HR and Operations

Microkeeper’s enterprise payroll software is rich in functionality, with tools designed to match the complexity and scale of large organisations.

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Custom payroll logic

Tailor pay rule logic to suit unique internal agreements, loadings, bonuses, or deductions. Set conditions based on roles, sites, or employee classifications.

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Award interpretation engine

Automate award application with a rules-based engine that can interpret multiple awards and EBAs within a single pay cycle. 

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Bulk onboarding and data imports

Add hundreds of employees with bulk tools. Distribute contracts, gather certificates, and track induction status in one streamlined process. 

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Advanced reporting tools

Access real-time dashboards and exportable reports tailored to your structure. Filter by departments, locations, or cost centres to drive insights and accountability.

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Role-based access and controls

Granular access settings allow finance, HR, operations, and executives to access only the data they need. Improve security while streamlining collaboration.

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Rostering with site-specific rules

Plan shifts, manage availability, and account for role requirements, break rules, and travel time, all tied into timesheets and payroll.

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Live timesheets and clock-ins

Track attendance in real-time via mobile, tablet, on-site terminals. Apply automatic rounding, break deductions, and late penalties based on your policies. 

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Digital payslips and STP compliance

Generate compliant digital payslips for every employee. Submit pay events to the ATO automatically with built-in Single Touch Payroll support. 

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Seamless super processing

Integrated with Beam Super, Microkeeper allows enterprise-level super contributions to be processed in bulk and submitted to multiple funds without external clearing houses.

Explore the unmatched benefits of Microkeeper’s enterprise software

Unlock the full potential of your workforce management with a proactive approach, where you receive not only advanced software solutions, but also unparalleled support tailored to your organisation’s unique needs.

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Dedicated Enterprise Support

Gain access to a specialised team of support professionals who are intimately familiar with your account setup and industry needs. This dedicated support team provides direct access to a team lead or manager, ensuring that you have expert assistance whenever necessary.Regular account review meetings help maintain continuous alignment with your evolving business needs, so you can focus on what matters most – your business success.

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Dedicated Account Manager

Your dedicated account manager serves as a single point of contact for all support and account-related enquiries. With regular check-ins and performance reviews, they will ensure you are utilising Microkeeper optimally. Enjoy proactive guidance to maximise product features and identify opportunities for improvement. With priority access to support and faster response times for any issues or queries, you’ll always have the assistance you need at your fingertips.

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Customer Success Manager

Your designated Customer Success Manager (CSM) is committed to understanding your business, industry, and specific goals. They conduct regular check-ins to review usage patterns, address any challenges, and provide tailored recommendations for optimal utilisation of Microkeeper’s features. Additionally, CSMs ensure that non-payroll teams, such as HR and Rostering managers,receive the support they need to thrive.

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Client Relations Manager

As your high-level dedicated contact with Microkeeper, your Client Relations Manager acts as a liaison between your organisation and our internal teams. They ensure that your feedback, concerns, and requests are heard and addressed promptly. Regular reviews of your satisfaction and needs help identify any potential issues with Microkeeper’s services or account team, fostering a strong partnership focused on your success.

Beyond the robust features available in our premium plan, the true value of the Enterprise plan lies in our dedicated accounts team, committed to ensuring your success.

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Custom Implementation

Our custom implementation service tailor 
the setup of Microkeeper to fit your unique business requirements. Our expert team manages everything from scoping and configuration to training and testing, ensuring
a smooth transition to our platform. 
This personalised approach guarantees optimal use across HR, rostering, timesheets, and payroll from day one.

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Custom Training Schedule

Receive custom training designed specifically for your organisation’s needs. These sessions include onboarding for new features as well as ongoing education to keep your team informed regarding updates and best practices. Whether through on-site visits or virtual training sessions, we make it easy for you to access new features and maximise their potential.

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Join Australia's leading enterprises

From national franchises to large service networks, enterprise clients choose us for flexibility, speed, and compliance. Want a tailored walkthrough? Our team will show you how Microkeeper can support your payroll complexity and scale.

Frequently Asked Questions

What is superannuation?

Yes, you can try us for free for 30 days. Our friendly team will work with you to get you up and running as soon as possible.

How often do employers pay employee super contributions?

Of course. Our pricing scales with your company. Chat to our friendly team to find a solution that works for you.

What is the role of employers when it comes to super contributions?

We understand that things change. You can cancel your plan at any time and we’ll refund you the difference already paid.

What is super stapling?

At the moment, the only way to add additional information to invoices is to add the information to the workspace's name.
What is enterprise payroll software?
Enterprise payroll software is designed to manage complex payroll needs for large organisations. It supports high employee volumes, multiple awards or EBAs, advanced reporting, and custom business rules. Unlike basic payroll tools, enterprise solutions like Microkeeper integrate workflows like onboarding, timesheets, and compliance into one scalable platform.
What makes Microkeeper suitable for enterprise?
We offer unlimited employee support, advanced rule-based payroll configurations, and tools that automate complex workflows across payroll, rostering, timesheets, onboarding, and reporting.
Can Microkeeper handle multiple EBAs?
Yes. Microkeeper’s award interpretation engine can process multiple EBAs simultaneously, applying correct rates and conditions based on roles, locations, and rosters.
How does Microkeeper ensure compliance?
Our tools are designed for Australian legislation and modern award conditions. We support STP, super, and leave tracking, with validation and audit history across all modules.
Is Microkeeper scalable?
Absolutely. From onboarding 10 employees to processing pay for 10,000 the platform is optimised for scale, both in functionality and performance.
Can Microkeeper integrate with other enterprise systems?
Yes. We offer API integrations and CSV imports/exports to connect with finance, ERP, and BI platforms. 

See what Microkeeper’s enterprise payroll software can do for your business

With Microkeeper’s enterprise payroll, you’re not just getting software, you’re gaining a dedicated partner committed to your success. Experience the difference that tailored support can make in optimising your operations and driving growth within your business.