Hi again Kyle!
The problem with trying to ask around these days is that many of the folks that originally used boxed standard TNC's have long since moved on to other data modes, or you find that they no longer use dedicated TNCs but instead use some of the newer audio buffer interfaces such as the ones produced by Tigertronics (Signalink).
These new interfaces allow the operator to use a wide variety of data/slow scan TV modes, and rely on the PC/software to do all of the work. The newer interfaces are only a fraction of the cost of the older style dedicated TNC units. Because of the low baud rates used for most of the modes, connection to the transceiver can be made via the microphone in and speaker out connectors. As pointed out above the software is doing all of the work, so what you gain in simplicity (of the interface), you loose out on because of needing a reasonable PC/software combo to do all of the 'donkey-work'.
For what you are trying to do (which reading between the lines sounds like a mixture of remote control, remote telemetry and data logging), then maybe the 'new kid on the block' might be of interest, or at least give you something more to include in you calculations. The latest digital system in Amateur Radio is called D-STAR, and depending on your requirements you can send voice, images, data etc, over the same system (at the same time!).
The system was created (or at least made commercial) by Icom, and many of their newer transceivers are D-STAR capable. You can use a DV-Dongle to link to other D-STAR sites via a PC and the internet too.
Just a thought anyhow. It might be a more adaptable system for what you are trying to do. You can find a brief intro to the subject here:
http://icomamerica.com/en/products/amateur/dstar/dstar/default.aspx
Or just do a Google search for "D-STAR".
The protocol they use is public domain so you could implement your own software to work along side the existing equipment and interfaces. Another point is that many of the D-STAR add-on boards are only an inch or two square, so you could 'graft' them into your own bespoke equipment, and many have GPS options which might be of use for tracking, or at least recovery of 'spent' high altitude vehicles.
73, Mark.
p.s. not sure if you know, but '73' is a code used by Ham operators which means "Best Wishes".