During 2006 and 2007, Alegre and Affinity worked on Eastern Skies,[7] an album of original compositions with the Global Studio Orchestra conducted by Gerard Salonga.

[8] In 2009 MCA released Johnny Alegre 3, a trio album with Ron McClure (bass) and Billy Hart (drums).

[10][11] In 2008, Alegre recorded Humanfolk, the name of an album and a band formed with percussionist Susie Ibarra, drummer Roberto Juan Rodriguez, Cynthia Alexander, and Malek Lopez.

[13][14] In November 2023, a retrospective of Alegre's urban folk compositions for Humanfolk were featured in a 2-hour recital at the Ayala Museum, hosted by the Filipinas Heritage Library.

[23][24][25][26][27][28] Johnny Alegre is a member of FILSCAP and tenured with the Philippine International Jazz and Arts Festival as a consultant.