Responsive HTML5 Search and Conditional Build Tags

Hey all,

I'm building content for two distinct workflows within a single software application. One workflow has little to do with the other and each is applies to a very distinct user base. There is a little content overlap, so to maintain consistency and reduce the number of files I've created one project with two conditions (one per workflow) and one build per condition.

However, when I build content that is tagged for the other condition is returned search -- since this content is excluded with the build tags I assumed it would not be included. I can't exclude the topics from search because I need to search it when I'm building for the other condition. Is there a solution to this problem or do I just have to create two separate RoboHelp projects? (Hopefully not the latter since it sort of defeats part of the purpose of having RoboHelp in the first place!).

Thanks in advance for any advice!