Pretty certain these lists have been done before but there's a host I would like to see remade.
The X-wing & Tie Fighter games plus expansion packs obviously, but also Wing Commander and the Privateer spin-offs. I was also quite partial to Strike Commander, especially the blood curdling scream from an opponent when you shot them down.
Quite a few flight sims would be on the agenda, probably top of the list F15 Strike Eagle, EF2000 and Longbow 2. Janes IAF would also be quite topical if somewhat a hot potato at present...
Someone mentioned Transport Tycoon, that did get reworked into Locomotion a few years back but graphically it was no real improvement and with the combination of poor AI and cramped unrealistic maps, gameplay was worse than the original. However, yes, a decent transport strategy game is long overdue.
However top of my list for a rework must be the 1999 Rally Championship. The graphics still look good now but imagine how realistic those long true-life stages would look rendered in something like the Crysis or COD engine, with accurate terrain data and decent draw distance. I drool at the thought!