Knuckles isn't Superman, really. I don't have unclimbable walls intentionally. He's only god in MAP95 and MAP96 as far as I can tell. I'll probably fix that sometime along the lines, but I haven't seen any reason to deal with it. After all, Sonic was the only player anyone ever used for the longest time. Knuckles deserves his time in the sun too.
The reason I has it altered was because me and Hedges came to the conclusion that Sonic is overpowered, as when Hedges switched back over to Sonic, he started doing better against me. Hence, on the STJr. road trip, we decided to fix Sonic so he wasn't as insane, and removing the multiple thok seemed like the fairest way to do it. If you try harder, you can learn to abuse the single thok, it's just not as easy to do.
In conclusion, Tails is for newbies, Knuckles is for intermediate players, and Sonic is for experts. It's intentionally done that way. I STILL think Sonic is overpowered, and Tails is underpowered. I assume we'll do a little more balancing before 1.1, but don't expect to get your multiple thok back...it's just too damn good.