Why BambooHR’s PTO accrual bug gave employees negative balances and the accrual correction script I ran

November 14, 2025

Jonathan Dough

BambooHR has become a staple for many companies seeking a streamlined Human Resources Information System (HRIS), especially for tracking Paid Time Off (PTO). While the software typically handles this responsibility effectively, a known bug recently surfaced in the PTO accrual process. This issue caused employees to unexpectedly see negative balances in their PTO records, resulting in confusion, concern, and a flurry of HR inquiries. The situation required not just an understanding of why it happened, but also a precise technical fix to restore accurate balances.

TL;DR Summary

Due to a bug in BambooHR’s PTO accrual logic — specifically around how accrual caps and retroactive calculations were handled — many employees were shown incorrect, often negative, PTO balances. The problem primarily stemmed from automated accrual processes that ran out of sync after a policy change. A custom script was written and executed to audit, recalculate, and correct all affected PTO records. The fix has restored accurate balances and ensured that future accruals reflect the intended HR policies.

Understanding the Root Cause of the BambooHR PTO Bug

To understand what went wrong, it’s first necessary to look at how BambooHR handles PTO accrual under the hood. BambooHR offers flexible options to define policies, including:

  • Accrual frequency (daily, bi-weekly, monthly, etc.)
  • Carryover limits
  • Employee start dates and proration
  • Balance caps and reset periods

The bug in question began after HR modified the PTO policy to allow for a higher cap and changed the accrual method from monthly to semi-monthly. These changes were backdated, which inadvertently triggered a re-accrual of historical data. Unfortunately, BambooHR did not process this retroactive data cleanly. Instead, it attempted to apply the updated rules to all past data — even when it wasn’t applicable — leading to negative balances or double deductions.

What the Employees Saw

Many employees began noticing discrepancies when they logged into their BambooHR dashboard. Common symptoms included:

  • PTO balances suddenly appearing as large negative numbers
  • Missing accrual entries for certain pay periods
  • Inconsistent reports where the transaction log didn’t match the summary

This led to understandable concern. In several cases, employees on approved vacation were told they lacked sufficient PTO, creating operational and emotional stress. Several tickets were filed with BambooHR support, but initial responses focused on usage rather than recognizing there was a deeper systematic issue.

Why BambooHR’s Accrual System Failed

The key failure lay in how BambooHR handled re-accrual after a backdated policy update:

  1. Timeframe Confusion: The system recalculated all accruals from the earliest employment date, instead of from the policy change date.
  2. Overlap with Time-Off Requests: Some employees had PTO requests that had been approved under the old system. When BambooHR attempted corrections, it did not account for those deductions, leading to double-subtractions.
  3. Cap Reassignment Errors: When the policy changed, employees who had reached their previous cap had their balances forcibly reduced to comply with old rules, despite the new cap intending to restore some of that time.

Diagnosing the System Impact

To understand the depth of the issue, a detailed data audit was conducted. The approach involved exporting the full PTO transaction history for every affected user. Cross-referencing accrual entries with HR policy settings and employment records revealed anomalies. Employees with similar tenure showed different balances, depending on whether their anniversary date passed before or after the change.

This sparked the realization that BambooHR’s system had no intelligent way of segmenting the application of past vs. new rules. Instead, it applied the final state of a policy retroactively.

The Custom Accrual Correction Script

To resolve the inconsistencies, a custom Python script was developed to recalculate accurate PTO balances. This script had several responsibilities:

  • Download PTO transaction logs via the BambooHR API
  • Parse each employee’s hire date, PTO type, and policy version history
  • Recalculate accruals using only the valid policy during the timeframe
  • Ignore or reverse invalid negative adjustments retroactively made
  • Generate a clean set of transactions to bulk-import back into BambooHR via the correction tool

One of the most challenging aspects was ensuring future accruals did not compound the error. To prevent this, the script included logic that aligned corrected balances with the next scheduled accrual cycle.

Implementation and Company Rollout

Once the balances were corrected, HR communicated the situation transparently to all employees, detailing:

  • What went wrong and why
  • How balances were recalculated
  • Where employees could see the corrected balances
  • Who to contact if any discrepancies remained

The rollout was relatively smooth thanks to early testing in a separate sandbox account and a phased deployment timeline. Employees greatly appreciated the transparency and immediate restoration of their expected balance. Moreover, the organization added logging & alerting to detect any similar bug behavior moving forward.

Lessons Learned

Several insights emerged from the experience:

  1. Do not backdate policy changes unless absolutely necessary. It’s better to sunset a policy and start a new one moving forward.
  2. Always simulate policy changes in a sandbox account first. BambooHR’s bulk processes are not easily reversible in production.
  3. Maintain regular exports of accrual data for independent audits. Relying on BambooHR’s internal logs can sometimes be misleading if retroactive changes occur.

Ultimately, the problem reinforced the importance of coupling automation with oversight — especially in areas that significantly impact employee wellbeing.

FAQs

  • Q: How can I tell if my company was affected by the BambooHR PTO bug?
    A: Check if employees with similar tenure have drastically different PTO balances, or if balances suddenly dropped after a policy change. Reviewing your transaction log can also help identify inconsistencies.
  • Q: Can BambooHR reverse the changes automatically?
    A: Not entirely. While they do offer support, their automated tools don’t account for retroactive policy logic. Manual scripting or API work may be needed, like in this case.
  • Q: Is it safe to change PTO policies mid-year?
    A: It’s safer to change at the start of a new accrual cycle and avoid backdating. If you must, test thoroughly and review historical impacts before publishing.
  • Q: Can other modules in BambooHR be affected by similar bugs?
    A: Possibly. Modules that handle retroactive data (like benefits or compensation adjustments) may encounter similar issues if changes are applied incorrectly.

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