Sencha Architect cannot change settings

I have installed sencha architect 3. Sometimes I am unable to update the project settings and then I have to reopen sencha architect to update the settings. This is very annoying. I am using Sencha architect 3 on a mac oSX 10.9.4. Here are the sencha version numbers:

Architect version ; 3.0.4.1386

channel : 3.0.1-stable

platform: 1.3.0.803

cmd: 4.0.4.84

framework : Sencha Touch 2.3.X

Let me know if there is a setting that I may have missed.