What would a good timer change in that matter though? Assuming there's no room for improvement, since both maps are practically Press Forward maps, then regardless of the timing method, the top runs SHOULD be tied, as long as the timing is accurate, if you think about it logically.
I don't mind removing the 2 levels. The usual solution is to let people just get that tied WRs, for sake of having accurate level count on the leaderboards, but your solution is also fine
Not to mention playing through Level Select doesn't cause the IGT to appear, it's only present in case of playing consecutive levels in Speedrun mode
All runs should be retimed, the IGT is insanely inaccurate in case of any degree of lag
In other words, you're admitting to using third party software in order to differ the way game's process intends to save time.
In other words you're lowkey cheating