I know that version numbers don't necessarily mean anything. Wine took 15 years to get to 1.0, while Chrome and Firefox increment major version numbers every few weeks. But it still seems odd to have a major web framework at 0.11 after six years.
No real problem. But I think many can have an subconscious bias that any software at 0.x is unstable. This is how semver[0] treats 0.x releases and it was a common convention long before that.
Sure. Nothing wrong with whatever (sensible) versioning scheme a project decides to use. But I think version numbers do bias the perceived stability. If I had never heard of Flask and I saw that version 0.11 was released after three years of no new releases, my gut reaction would probably not be overly positive. That said, Flask is indeed a great piece of software :)