The newest PCgen version broke the workaround for the Monk Flurry of Blows. The html preview is still incorrect (+11/+11/+11/+6 instead of +11/+11/+6/+6) but now the outputsheets have the same problem. The workaround is still in the files (I checked) but no longer working.
Also, Power Attack (Flurry) is using the wrong scaling. It seems to be using Monk BAB scaling (3/4) instead of Flurry BAB (Full) scaling. There is a FAQ entry that confirms this:
Power Attack Flurry should be -3 hit/+6 damage instead of -2 hit/+4 damage.
And lastly, enlarge person seems to increase the damage dice by 2 steps instead of one. 1d10 should become 2d8, but becomes 3d8 instead.