Underpayments in Medical Billing: Paid, but Still Wrong

December 1, 2025 | RCA Team
Medical office worker at desk with laptop and calculator

What is An Underpayment in Medical Billing?

An underpayment in medical billing is when a payer reimburses a claim below the contracted amount. The claim processes, posts as “paid,” and looks complete in the billing system—even though the provider was shortchanged.

Underpayments are one of the largest sources of invisible revenue leakage in healthcare, mostly because so many go unseen.

Two Types of Underpayments

Providers see two broad categories. One is obvious; the other is where most losses occur.

1. Underpayments Everyone Recognizes

These show up clearly in a remittance:

  • The allowed amount is lower than the contract rate
  • Units reduced
  • Incorrect copay/coinsurance
  • A claim paid at the wrong DRG/APC
  • The payer loaded the wrong fee schedule

These variances are visible in the 835 and can often be identified with straightforward reporting.

2. Underpayments That Go Unseen

These losses don’t announce themselves. The claim processes normally, posts as “paid,” and shows no obvious signs of deviation. Common examples include:

  • Hidden bundling or local edits 
  • Silent downcoding/regrouping 
  • Outdated or partial fee schedules 
  • Modifiers ignored/stripped

Because nothing in the remittance signals that anything is wrong, these reductions rarely trigger work queues or reviews. The final numbers look plausible, especially on low- and mid-dollar claims, so the losses accumulate quietly.

Why Underpayments Happen

Payers rely on large automated systems to process claims. These systems apply layers of logic the provider never sees, including:

  • proprietary pricing edits 
  • payer interpretations of policy
  • inaccurate or partial contract loads 

Because these edits operate at scale—and almost always in the payer’s financial favor—they create predictable downward pressure on reimbursement. 

These are patterns built into standard payer operations, applied claim after claim, subtle enough that only detailed variance analysis can detect them.

Underpayments vs. Denials

The two problems are often confused. A denial is a refusal to pay at all. An underpayment is payment that is less than what is owed.

Denials generate work, while underpayments usually don’t.

But financially, the loss from underpayments is often larger because the volume is higher and detection is harder.

Where Providers Are Most Likely to Miss Underpayments

Most revenue cycle teams monitor:

  • Claim denials
  • Zero payments
  • Rejections
  • High-dollar variances

They rarely monitor:

  • Small-dollar underpayments across thousands of claims
  • Recurring variances by payer or service line
  • Contract misloads
  • Silent reductions in specific DRGs, APCs, or CPT ranges
  • Patterns in allowed amounts that shift over time

This is where the losses add up. A few percentage points off the allowed amount, applied across an entire year’s worth of claims, creates material impact even for providers with strong denial management.

How to Identify Underpayments

Providers don’t need expensive vendor tools to detect most issues. The data is already on hand.

Start with simple comparisons:

  • Expected vs. allowed amounts based on your contract terms
  • Units billed vs. units paid
  • Modifiers submitted vs. modifiers paid
  • Average allowed amounts by payer, looking for downward drift
  • Recurring reductions by CPT/HCPCS, DRG, APC
  • Variance reports built directly from 835 data

The goal isn’t to review every claim manually; it’s to surface patterns that reveal where the leakage is coming from.

The Bigger Picture: Underpayments as Operational Leakage

Underpayments look routine on the remittance, but they follow the same reduction patterns found across operational revenue leakage. 

A broader look at those patterns, as well as the diagnostic checks and corrective steps that address them, is covered in our comprehensive discussion of operational revenue leakage.

About the Authors

This post was prepared by members of the Revenue Cycle Associates team, drawing on our decades of experience working directly with healthcare providers on revenue cycle challenges. We aim to translate complex and evasive payer strategies into clear, actionable insights for providers nationwide.

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