Another option. If you subscribe to Mustang Monthly, there was an article in the September 2016 issue about the Modern Driveline's TKO 5 speed conversion. What got my attention was that they make a low profile version that will fit the trans tunnel without ANY modification for '67-'73. (Ok in the text it refers to 67-70, but in the title, it's 67-73) ???
OK, it's a 5 speed, not a 6, but I would definitely look at this option if it were me. Something to consider as an option for sure. I have a buddy swapping a 6 speed into a 71 Mach with a 429... it's a lot of work and expensive, according to him!!
Good luck with your swap and let us know what you decide.