In this paper some geometric structures on Finsler Lie algeboids are studied and h-basic distinguished connections are introduced. Specially, Ichijyō connection that is a special h-basic distinguished connection is investigated. The generalized Berwald Lie algebroids are presented, as a particular case of Finsler Lie algebroids and Wagner-Ichijyō connection, that is a special case of Ichijyō connection, is studied. Moreover, the Wagner Lie algebroid is introduced and some equivalent conditions for this space are given. Finally, an optimal control problem is solved using the Pontryagin Maximum Principle in the framework of a Finsler Lie algebroid