To be fair to MassDOT, given that there's zero current prospect of LRT in Charlestown, no prospect prior to maybe 2050, and not even a conceptual proposal on the table, why would they future-proof for it?
The plan that has been on the table is for Gold Line BRT on Congress to the Navy Yard, but the bridge can definitely handle that.
If the concept is to replace the Tobin somehow, there's no point in trying to get light rail on a bridge. Build a subway tunnel, and figure out what it connects to or where it goes. This is a multi-decade horizon.