Complex sentence: Each year they received First place in the Tall Flag and Lyrical Flag categories and they have been the overall Flag division State Champions--which means they had the highest score, regardless of category, of all the teams that competed with a flag routine.
Split into simpler sentences: Each year they received first place in the Tall Flag and Lyrical Flag categories, and an addition to that they have been the Overall Flag division State Champions. Having had highest score, regardless of category, of all the teams that competed with a flag routine.