Abstract Currently three ESO/VLT instruments employ IFUs: FLAMES/GIRAFFE, VIMOS, and SINFONI. As all other VLT data, the IFU data from these three instruments are fed into a data flow system that provides, as main functions, archiving and pipeline processing. On Paranal quick-look data reduction is performed, while at Garching Headquarters quality-controlled calibration solutions and science products are produced. The pipelines also extract quality information from the data, which is fed into a database and is available for long-term performance monitoring and trending. This article focuses on the data processing and quality control processes of GIRAFFE and VIMOS data.