Borgs should retain its flash. It has its uses. The clerical tools are a welcome change for all modules, they aren't for everyone, but I use them in my RP when I can.
Rescue flying is fine, you can't do your job without it. There are areas of the station a borg can't reach or escape from without a jetpack, and these areas are frequently visited by clumsy miners with broken legs.
The changes are great, my only slight worry is that Rescue can do 95% of chemistry tasks now, but that may not be a bad thing for when there is down time. The medical module still retains it's niche of surgery, so having both capable of chemistry shouldn't be too bad.