If you don't have a 39 shifter housing with the 3" fork, you can put the same 3" second/high fork in your 1936 shifter housing. This fork is necessary to operate the 39-48 synchro gear properly.
You keep all the same '36 rear retainer and mount parts. If you have obtained a complete 39-48 trans for this swap, be sure to use the complete gearset. Naturally, you'd want to replace all bearings, thrust washers, and probably the bronze synchro rings.