I used nvm (node version manager) to upgrade node form v0.4 to v0.6.9
I used the following commands:
node -v -> v0.4.x
git clone git://github.com/creationix/nvm.git ~/.nvm
nvm install v0.6.9
//wait a while
node -v -> v0.6.9
rm -rf .nvm
The info I think you're missing is that nvm lets you manage multiple versions simultaneously. It does this by playing magic with your environment and paths.
After a reboot, I suspect you need only run these lines:
. ~/.nvm/nvm.sh nvm use v0.6.9
That should cause you to re-enter the "magic" nvm environment which you previously installed v0.6.9 in.