Honestly, I'd reconsider getting a v6. It'd be easier to swallow if you were going from a 96-98 GT to a 01+ v6, but a 5 liter cobra is going to be night and day, and not in a good way.
What's your budget after selling the cobra? You can probably find an SN95 GT or possibly a 99-00 GT for what you would pay for a 01+ v6 if you play your cards right.
12 Black GT500 SVT PP l 2.6 Pulley/Idler l Airaid l o/r X l 305 NT555R's l Recaros l
04 Azure Blue Mach 1 / 03 Sonic Blue 3.8 / 14 Sterling Grey F150 FX4 402A 5.0 / 11 GT500 R.I.P.