I think the War Shrine is very valuable, and I also think it is more interesting as a facility than as a component. Having a 15% two-way combat bonus that no one else (except Temporal) can match, for no maintenance and no ship space used is very powerful. Limiting to facilities is an interesting limitation, and creates interesting tactics as and against religious empires. It tends to be overshadowed by the talisman in unmodded games, but it's not useless even then. Unless, of course, your play style doesn't include using it.
PvK