Yes, Hyperlight EX has MFi controller support!
Hyperlight EX on iOS does support controllers and is compatible with the MFI standard.
SPECIAL LAUNCH PRICE!! ** Hyperlight is an high intensity arcade action game in which you control a spaceship that fights against hordes of evil alien monsters in a virtual cosmic environment.
Stunning game graphics, rich in special effects, enemies and explosions! - Innovative gameplay, immediate and highly rewarding! - Arcade Mode with 50 levels, 8 mid-boss stages and 4 final boss battles! - Infinity Mode with tons of new levels and several mid-boss stages.
Global Online Leaderboads for Arcade, Infinity and Panic game modes.
Achievements system: 40 unlockable medals! "CatfishBlues Games has taken the score attack shooter genre and taken out most of the shooting, resulting in a fun, frantic, difficult game that arcade fans will surely enjoy." - NintendoLife.com "Hyperlight is a feast for the senses and a worthy successor to the twin-stick shooters that led up to this title. While the learning curve is likely to put off some players, the challenge is well worth tackling head on and is recommended for those after something a bit more exciting than the usual shooter." - AppSpy.com.
Hyperlight EX supports MFi controllers.