executeMicroflowInBatches only processing half of the batch

This is something we have seen before, with the batch processing but I could not find the cause of it and do not remember if there was a sollution to it. It seems it is happening again. I use the executeMicroflowInBatches java action from the community commons. The xpath is a boolean. It should only process the record if the boolean is set to false. After this microflow only half of all the records are processed. What could be the cause of this?
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