Quote from Misa
The shiny stuff is already done. As far as wavy grass and wheat goes, this will not be done. I did a whole day's worth of experiments on how to best pull this off and even with the best possible method I could find, it looked way too artificial and wasn't remotely easy on the eyes. This is largely due to the limitations of transparency on Minecraft's renderer. We either need a full gradient of degrees of transparency, or things like waving grass and wheat need to be handled by a shader that animates the geometry the textures are applied to. So yeah, to reiterate, waving grass and wheat is currently not possible.
For those of you with installation issues regarding MCPatcher: Clean your installation as the instructions on my thread request. You're probably running MCPAtcher with some old backup jars in there and it's just reverting to those and causing your problems. All backup jars need to be removed from the bin folder if you plan on using any of the pre-release stuff. And ensure the version of MCPatcher you're using is v2.2.1. Also ensure you've actually selected the newest texturepack in-game and didn't just put it in the folder and think it was only partially working because you already saw my textures up from a previous version you had selected.
Also if for Minecraft, you're using a pirated version or the web client, you're doing it wrong. MCPatcher is made to work with the paid for, downloaded client of the game. Issues arising outside of that client I cannot help you with any further than I already have.
Out of simple curiosity would you happen to still have those files for the bad wheat/grass? I am kinda curious to see what it looked like.