JohnW, TBHWY I think the request for an all TC HM is a rare one, and therefore it doesn't make much sense to re-design the board to add the option to use TC shields for each probe. As you can see now, there are a few avenues to pursue if an all TC HM is what you want, and making this mod is fairly straight forward once you decide on how you are going to build the TC amps.
There is no need to build a new HM to change probe configs, it's very simple to change between probe types, it just a matter of having a TC amp and switching in/out the pullup resistor for that probe. I worked out long ago a switch that can be added for the pit probe to switch between an external TC Pit Probe and an onboard standard pit probe, a simple double pole double throw switch can handle switching the probe inputs and switching the pullup resistor in/out at the same time.
As Steve said, the beauty of the HM is the open source nature, which gives you the freedom to make the HM the way YOU want it... in addition to that, the willingness of the HM community to help a brother out with a unique pursuit is also a plus. Personally I feel the all TC HM is and will remain a rare request, as the main reason for the TC pit probe in the first place was to make the pit probe capable of handling higher temperatures and a the harsh environment in the pit, food probes don't experience those sort of extremes as meat never really gets above 200F by much, so standard probes work just fine in the food probe role.