hey just a note to let you guys know that when using the project upgrade utility or addin, to upgrade a web project. It doesn't change references in a Master page.
I've just researched this, and using a simple application have verified that there appears to be a bug in the utility when dealing with master pages. I've sent this forum thread over to Developer Support so that a case can be opened, and bug logged so the issue can be resolved.
My response is after each question you asked.
What version where you coming from? = VS 2008 sp2
What version where you coming from? = Version=8.2.20082.1000
What controls specifically did you have on the Master Page?
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Are you using a File System setup, or project? It's a solution file mutiple projects. It gets compiled and installed using windows installer
this was a fresh install on a VM, the only product of Inragistics was the 2009.1 installation.
It did all web pages just fine, just had trouble with the master page.
Sorry to hear you had this issue; we currently don't have any reported issues where the tool doesn't upgrade Master Pages. Can you provide some more information about your project?