Making this post to list some differences I've noticed between versions. From what I've seen of game-play on the Wii version compared to the Wii U, the Wii version seems to have the most potential to save time for two reasons. Though I don't understand how these two things specifically changed in the jump from Wii to Wii U. One is that the Wii U version (for whatever reason) seems to think that defeated enemy parts and some solar cells are still solid only when trying to dash through them. This does not seem to exist on the Wii version. The other and more major reason is a glitch only in the Wii version (as far as I'm aware) to move around during the cut-scene after throwing a bomb in the containers on the icy fortress level if you throw it in close enough. While the Wii version forces you to collect 3 cells at the very start (which would also mean collecting less in the actual levels), this glitch more than makes up to save any time lost and then some compared to the Wii U version if utilized fully. While on the topic, both versions can still two-cycle the first boss by timing the first hit as the boss is spitting out (or about to spit out, not quite sure) another bomb. Overall, unless some variation of the Wii's glitch to move during cut-scenes is doable on the Wii U version, the Wii (and by extension Wii emulator) version would be the superior version.

In my limited testing with both console versions I've found that the wii u version lags in the icy fortress for whatever reason, the other things you mentioned I didn't notice but it's good to know! Going over your run for verification right now, hope you are enjoying speed running the game!