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One glance at the filter energy plot shows a substantial chunk of events missing for the all the tests, for example at lower energy for AllGamma (below left). The effect is the same for also present for B1-1-2 in GRv15r46p1. Note that the system test filter energy plot has no cuts applied and the job options are set to pass all events.
On the bright side, we are removing background events with a shocking efficiency. Looking into a discrepancy between the system test merit file and this plot. There should be a few hundred events in it.
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Tracy took a look at the discrepancy and found that this is a problem in the MC simulations exposed by the new and early processed "non-physics" filter bit in GammaFilterV3. This is not a problem for data and did not appear in the test bed studies. The new filter version makes a cut on GEM bits, and these are not being set properly in the simulation. This will clearly need to be fixed in the simulations, but Tracy concludes it will not impact data processing.