Municipal finished third behind Motagua of Honduras and Saprissa of Costa Rica in the recent Central American club championship. Harbour View won the Caribbean club championship.
In the other quarterfinal pairings, Atlante, Mexico's 2007 Torneo Apertura champion, will face Saprissa, while Mexico's Pachuca, the defending champion, will play Motagua.
CONCACAF has announced plans to introduce a CONCACAF Champions League for 2008-09, after the 2008 CONCACAF Champions Cup ends.
Quarterfinals: March 11-13, March 18-20.
Semifinals: April 1-3, April 8-10
Final: April 22-24, April 29.