The middle box is probably the KAI icon. Look for "<description>xlink kai conditional button</description>" this entry and grab the ID from the working skin and replace it. You may have to look over the entire home.xml if that does'nt work.
As for the weather look for these entries:
<description>Weather temperature</description>
<description>Weather conditions</description>
Why the ID's are different, I dont know. Maybe modified builds. Thats why people usually just post code snippets for others to copy into their home.xml. But I figured I'd save some people time by offering entire home.xml, but that does'nt alway work with different or modified builds i guess. Particlualry when the ID values have been changed.
EDIT: Btw, when you copy your new XBMC build to your xbox drive, do you boot from the EVOX boot cd, delete your entire XBMC folder, then ftp over your new build?
Thats the way I do it. Though you may want to save certain screenshots or anything XBMC may have stored in its folderes.