The Phillies returned Trlicek to the New York–Penn League in the 1988 season, this time to the Batavia Clippers, where in 8 starts, Trlicek had a 2–3 record with a 7.36 ERA.
In 1988, the Phillies reassigned Trlicek to the Batavia Clippers of the New York–Penn League. During his eight starts with them, he compiled a 2-3 record and an ERA of 7.36.