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By Dr. Pramod Kr. Pandey - June 26, 2025

Dr. Pramod Kr. Pandey is a distinguished Analytical Research Expert with over three decades of extensive experience in the pharmaceutical industry. He has contributed his expertise to both leading Indian and global pharmaceutical companies, consistently driving innovation and excellence in analytical research

HPLC troubleshooting is the process of identifying common HPLC problems, their possible causes, and providing practical solutions to these problems to ensure reliable results and minimise downtime. High-Performance Liquid Chromatography (HPLC) is a powerful analytical technique used widely in pharmaceutical development and several other industries. However, like any complex instrument, HPLC systems can experience performance […]

HPLC Troubleshooting: 5+ Common Problems and Their Solutions

HPLC troubleshooting is the process of identifying common HPLC problems, their possible causes, and providing practical solutions to these problems to ensure reliable results and minimise downtime.

High-Performance Liquid Chromatography (HPLC) is a powerful analytical technique used widely in pharmaceutical development and several other industries. However, like any complex instrument, HPLC systems can experience performance issues that affect accuracy, precision, and efficiency. In this article, I will discuss quick identification and resolution of these problems to ensure reliable results and minimise downtime.

HPLC Troubleshooting

The process of identifying common HPLC problems, their possible causes, and providing practical solutions to these problems to ensure reliable results and minimise downtime is called HPLC troubleshooting. The following are the common problems of the HPLC :

  1. No Peaks or Low Response
  2. Retention Time Shifts
  3. Peak Tailing
  4. Peak Fronting
  5. Baseline Noise or Drift
  6. Peak Splitting
  7. High Back Pressure
  8. Expert Tips

1. No Peaks or Low Response

Possible CauseSolution
Verify and set the correct detection wavelengthCheck lamp status and intensity; replace if needed
Wrong wavelengthRe-check the injection protocol and sample composition
No sample injected or wrong sampleAllow sufficient time for the column to equilibrate
Leaks in system (e.g., injector, tubing)Inspect and tighten/replace connections
Column not equilibratedAllow sufficient time for column to equilibrate
Detector cell or flow cell cloggedFlush or clean the detector cell
Incorrect mobile phase compositionCheck and prepare fresh mobile phase

2. Retention Time Shifts

Possible CauseSolution
Mobile phase composition changedRe-prepare mobile phase with precise ratios
Column temperature fluctuationEnsure stable and correct column temperature
Flow rate inconsistentCalibrate pump and check for air bubbles
Column degradationTry with a new column or clean existing one
Changes in sample matrixMaintain consistency in sample preparation

3. Peak Tailing

Possible CauseSolution
Column contaminationFlush or regenerate column
Sample overloadCheck and minimise extra-column volume
Inject a smaller sample volume or dilute sampleUse end-capped columns or modify mobile phase
Secondary interactions with the columnAdjust pH to reduce interactions with silanol groups
Bad connections or dead volumeCheck and minimise the extra-column volume

4. Peak Fronting

Possible CauseSolution
Sample too concentratedDilute the sample before injection
Column is overloadedInject smaller volumes
Injector problemClean or repair the injector
Voids in packingReplace the column

Chromatogram containing a symmetrical peak, a tailing peak and a fronting peak

HPLC troubleshooting

5. Baseline Noise or Drift

Possible CauseSolution
Degas the mobile phase, purge the systemDegas mobile phase, purge the system
Contaminated mobile phaseUse freshly prepared, filtered, and degassed solvents
Temperature fluctuationsEnsure thermal insulation or use a column oven
Detector lamp agingReplace the lamp if the intensity is low
Dirty flow cellClean or flush with solvent

6. Peak Splitting

Possible CauseSolution
Poor column packingReplace the column
Incomplete sample dissolutionEnsure sample is fully dissolved in injection solvent
Dead volume or mismatched tubingUse appropriate tubing and fittings
Injector malfunctionCheck for leaks, clogs, or timing issues

7. High Back Pressure

Possible CauseSolution
Blocked column or fritReverse-flush or replace the column
Clogged tubing or guard columnCheck and clean or replace parts
Viscous mobile phaseUse lower viscosity solvents or raise column temp
Air or particulate matterUse in-line filters; properly degas solvents

8. Expert Tips

  • Regularly flush and maintain the HPLC system with warm water
  • Use Guard columns to protect the HPLC columns
  • Always filter and degas mobile phases
  • Filter the samples
  • Log system parameters for early detection of drift
  • Maintain consistent lab conditions (temperature, humidity)

Conclusion

Effective HPLC troubleshooting requires a systematic approach, attention to detail, and a good understanding of the system components. By recognising common issues and applying the appropriate solutions, analysts can maintain consistent performance and data quality. Regular maintenance and preventive practices further reduce the likelihood of problems, ensuring smooth and reliable operation of the HPLC system.

FAQs

Why are my HPLC peaks broad and poorly resolved?

Broad peaks often result from column degradation, incorrect mobile phase composition, or flow rate issues. Check column health, optimize mobile phase, and ensure consistent flow rates.

How can I prevent air bubbles from causing baseline noise?

Always degas your mobile phase thoroughly and use inline filters. Purge the pump and detector regularly to remove trapped air

What should I do if my retention times suddenly shift?

Check mobile phase composition, flow rate stability, column temperature, and sample consistency. Also, inspect for system leaks or pump issues.

What is HPLC troubleshooting?

HPLC troubleshooting is the process of identifying common HPLC problems, their possible causes, and providing practical solutions to these problems to ensure reliable results and minimise downtime.

Why does my detector show no signal even though the sample is injected?

Possible causes include detector lamp failure, incorrect wavelength settings, or sample injection errors. Verify detector status, set correct wavelength, and confirm proper injection.

Further Reading

About Dr Pramod Kumar Pandey
Dr. Pramod Kr. Pandey

Dr. Pramod Kr. Pandey is a distinguished Analytical Research Expert with over three decades of extensive experience in the pharmaceutical industry. He has contributed his expertise to both leading Indian and global pharmaceutical companies, consistently driving innovation and excellence in analytical research

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