Filters not picking up sub-folders when setting new rule/filter

I'm presently trialling the professional version and have just imported my emails from a couple mailboxes. I've set up a few subfolders under the inbox heading. When trying to set a filter from an email there is an option to select a folder, however it does not show any of the new subfolders I have created, only the pre-existing folders, e.g. inbox, drafts, etc. I have refreshed the browser and this makes no difference. If I try to create a new folder from this panel it just puts it as a first level folder, not a second or third. Can this be fixed? (As an aside all new labels show up as options).