He also composed the film score and wrote the songs for its animated sequel, Bartok the Magnificent (1999). He wrote the original film score for the documentary After the Storm (2009), which follows a group of teenagers as they perform Ahrens and Flaherty's Once On This Island in New Orleans post-Hurricane Katrina. He composed the song score and co-wrote the film score for Lucky Stiff (2014), which was based on his and Ms. Ahrens' stage musical of the same name. Occasionally Mr. Flaherty writes with other collaborators. His "chamber-scale musical," Loving Repeating: A Musical of Gertrude Stein, written with his Ragtime director, Frank Galati, premiered in Chicago in February 2006, in a co-production between the About Face Theatre and the Museum of Contemporary Art.[11] The musical won Chicago's Joseph Jefferson Award as the “Best New Work” of the year. An earlier version of the show was initially titled A Long Gay Book, and had its premiere at Northwestern University in May 2003.[12] Flaherty collaborated with the director-choreographer Christopher Gattelli on a new "dance-theatre musical", In Your Arms, which premiered at the Old Globe Theatre, San Diego, California, September 24, 2015. The show consists of 10 vignettes on the topic of “romantic destiny”, which were written by Douglas Carter Beane, Nilo Cruz, Christopher Durang, Carrie Fisher, David Henry Hwang, Rajiv Joseph, Terrence McNally, Marsha Norman, Lynn Nottage and Alfred Uhry, all of which were set to music by Flaherty. All the vignettes are danced without words. Lynn Ahrens wrote the lyrics for the title song. The show starred Donna McKechnie and George Chakiris and eighteen powerhouse dancers. The musical had a staged workshop during the summer of 2014 at New York Stage and Film & Vassar's Powerhouse Theater at Vassar College.. For the concert hall, Flaherty wrote the music for "With Voices Raised" (text by Lynn Ahrens), which was commissioned by the Boston Pops Orchestra in 1999. It had its world premiere in Boston on July 4, 1999, which was nationally televised, featuring Senator Ted Kennedy as one of the speakers. It was subsequently released on the Pops' recording "A Splash of Pops" on the RCA Victor Label, July 13, 1999. He also wrote the music for the "American River Suite", with lyrics by Bill Schermerhorn and commissioned by Macy's. The piece premiered in April 2009 at Carnegie Hall by the New York Pops and sung by Idina Menzel, Anika Noni