Well it's not flagged, because it's deleted, losing save game progress.
I'm going to cop a shit storm for Star Nomad Elite on iOS due to this.. lots of iDevices often run low on storage due to no external microSD options.
I posted it to ludei troubleshooting site too, since I don't know where the problem occurs, C2's WebStorage plugin or CJS WebView+ implementation of extra generated files.
Edit: IF and when Phonegap implements WKWebView, they would also need to be wary of this issue.