Forum Moderators: Robert Charlton & goodroi
I was reading about this and seems many people have more issues after they try to solve the canonicalization issue then before they address it at all..
Yes, there are naturally some risks with an established site. You may see a dip in traffic from Google while they sort things out.
The key is to get it right the first time. Don't put a canonical fix in place and then switch it around to the other direction and so on. We've seen several cases of long term trouble in those situations. If you do it, just do it once and stick with it. If needed use webmaster Tools to communicate about any extended problems if they come up.
It's probably a good idea to back up your canonical fix by making the same decision in your Webmaster Tools account. And definitely change every internal link on your site to your chosen canonical form. I'd make that step #1
It is vital that users clicking on any internal link never see their browser hitting a redirect as they navigate the site.
Programs like Xenu LinkSleuth are very useful to find such problems.