OK bit stumped now with this so figured I'd ask here and see what you ninjas can come up with...
Basically I have a site that was doing really well in Google.com / .co.uk / .ca. After the first (and last) penguin update rolled out I saw a few hits on 3 big keywords.
The site took a bit of a beating in the .com and .co.uk however still ranks REALLY well in .ca.
I've been working on cleaning up some of the sites backlinks especially on the 3 pages of the 3 big keywords that was lost in the penguin update. It's worth noting that it was keyword specific as one of the big synoms still ranks well in .com today.
Over the last few weeks, with the links been cleaned up and a disavow list submitted I'm seeing a few long tail synoms coming back but still nothing on the big terms.
I never received a warning in Webmaster tools for the links, it was the algo penguin hit.
The website is hosted in the US, and I have not set a country target in webmaster tools.
I thought maybe it was the delayed country algorithm update but its now been like this for months so it's not like the .com and .co.uk have not updated I don't think.
I've tried looking into this as much as I can and kind of conceded to the fact I might have to wait for penguin to run again to see if I've cleaned the links up enough to get out of the auto penguin penalty...