He made his professional debut with the rookie-level Gulf Coast League Braves, posting a 3.83 ERA over 12 starts.

Atilano spent the 2004 campaign with the rookie-level Danville Braves, posting a 5-1 record and 4.20 ERA with 54 strikeouts across 13 starts.

He made 19 appearances (18 starts) for the High-A Myrtle Beach Pelicans in 2006, compiling a 6-7 record and 4.50 ERA with 45 strikeouts across 116 innings pitched.

[7] He made 2 appearances for the Double-A Pensacola Blue Wahoos and Triple-A Louisville Bats, struggling to an 0-2 record and 8.44 ERA with 3 strikeouts across 5+1⁄3 innings pitched.

On February 10, 2014, Atilano signed with the Lancaster Barnstormers of the Atlantic League of Professional Baseball, but never appeared for the team.