My updated list:
Items untextured
SELECT ITEM SUBSCREEN
-faded weird egg
-faded chicken
-faded Sold out
-faded versions of all adult link items.
-Blue Potion
WORLD/DUNGEON
-Spider Web in "Inside the Deku Tree"
-Path to Death Mountain Trail from Karkariko Village
-Several Grottoes. One example would be the one in Karkariko Village with the 2 redeads.
-Stormy Sky
-Back of rectangular signs.
-Go to Zora's River, and get to where you get the waterfall to open up. When you land there, you'll notice some textures that have been un-retextured.
-Most of Zoras and Gorons.
-Something in Kokiri Forest ->
http://img399.imageshack.us/img399/6614/untitled7yi.jpg
FILE SELECT
-Letters when you select new name.
-Buttons from file select (File 1, File 2, ect)
-Items in Options
Errors I have
-I have a mass of blue dots appearing in Hyrule Castle Market.

Any Solutions?
-Some objects have parts that.. "strech". Example picture:
http://img457.imageshack.us/img457/6724/untitled7ib.jpg
-Soem problems:
http://img484.imageshack.us/img484/123/untitled9xo.jpg Look at the "PRESS START". Looks odd.
Please help add on to this.
And yes, I am using Rice's Plugin 6.1.1 beta 10