Hmm... can MRS ships dock? That would open up VERY interesting possibilities.
On a seperate note, a possible balance change: when transport is destroyed, all ships are stunned for a maximum of 5 seconds, with 40 ships coming on-line per second. That would balance out the current ninja-transporting that is so exploitable (ie, dropping one or more transports on top of an objective, then scrapping it and instantly unloading 200 ships per transport), which is currently far superior in many cases to unloading when out of supply. At the same time, it would allow the speed and hp of transports, which are a major advantage in the current beta, to remain unchanged.
For most warp raids, it would make no difference, and for many other attacks it wouldnt matter either (you would effectively unload 4x faster, but at the cost of the transport); however, it would prevent you from dropping 3000+ ships on top of a homeworld and obliterating a core forcefield and station in the initial volley. Thoughts?