At least for VS 2012 you can actually just update from the command prompt as shown on the Scooter website. http://www.scootersoftware.com/support.php?zz=kb_vcs#gitwindows
If you’ve installed msysgitVS using the Configure User Tools thingy in VS, your path to Git will probably be:
C:\Program Files (x86)\Git\cmd\git.exe
For Git 1.7.6 and newer, edit the global config file to set the path. At a Windows command prompt enter the following commands:
For Beyond Compare v3 use:
git config –global diff.tool bc3
git config –global difftool.bc3.path “c:/program files (x86)/beyond compare 3/bcomp.exe”
If you’ve got PRO license, also these:
git config –global merge.tool bc3
git config –global mergetool.bc3.path “c:/program files (x86)/beyond compare 3/bcomp.exe”
Then when doing a comparison in Visual Studio it will use BeyondCompare.
For Beyond Compare v4 use:
git config –global diff.tool bc4
git config –global difftool.bc4.cmd “\”c:/program files (x86)/beyond compare 4/bcomp.exe\” \”$LOCAL\” \”$REMOTE\””
and
git config –global merge.tool bc4
git config –global mergetool.bc4.cmd “\”c:/program files (x86)/beyond compare 4/bcomp.exe\” \”$LOCAL\” \”$REMOTE\” \”$BASE\” \”$MERGED\””
git config –global mergetool.bc4.trustExitCode true