Just went to the SwiftKey forum to report the issue and it looks like this is an issue for many apps:
I have found it not to work in the following search boxes:
I could probably continue, but I think we get the point.
- Play Store
- Titanium Backup
- Amazon App Store
- Root Explorer
- Google Maps
- Google Drive
Pretty major issue IMO. If that's not fixed soon, I'm going back to Swype.