You are correct. Currently there are only 2 profiles available; our default generic settings and the one specifically for the MakerGear M2. In reality, any of these profiles can be adapted for other materials and print qualities. For example, select the MakerGear_M2_PLA.fff profile and then choose ABS and High quality. Those auto-configuration options are intended to be used with the included profiles so the modifications are simple to make. As you print more you may want to start exporting more highly calibrated settings like M2_ABS_HighQuality_HollowPart.fff or something like that.
Slipshine - I would start by choosing the M2 profile and then selecting the Nylon material option. However, there isn't a lot of experience with Nylon right now, so you may have to do a bit of experimentation to get the best results. Maybe try using some of the new options in v1.1.0 to print different sections of a test model with different settings to see what region looks best.