With this profile loaded, we ran into some trouble with the extrusion rate. The filament feed does not appear to be fast enough for the Replicator 2, causing it to bake and clog in the extruder head.

We're attempting to make it match a known-good configuration from MakeMe -- https://github.com/make-me/make-me/blob/master/config/grue-default.config

Any tips?

/cc @jfryman @jameswhite

Where did you come up with the retraction settings included in the profile? I was printing some engraved text prints and the retractions seemed to be causing some print failures because there was too much air being introduced to the extruder melt zone. However I am also just starting to play with the cura slicer so there could of been a number of other issues.

The MBI slicer uses much slower retraction speeds and smaller retraction distances. The speed is 25mm/s and the retraction distance is 1.3 mm. Your profile is using 25mm/s and 5 mm for the 2 values respectively. the melt zone in the rep 2/2x extruder is somewhere in the 5-10 mm range.

I'm wondering, why didn't you just contact me 2 months ago? It's a few lines of code to add the changes so you no longer need a script:
Ultimaker/CuraEngine@4f5b366

(I'm not allowed to post in the MakerBot Opperators google group, which is a bit annoying. Does not mean I'm not willing to help out getting Cura up and running for MakerBot users)