Fonseca played two years at the University of Northern Iowa. In 2007, Fonseca pitched in 66 innings and had a 4.09 ERA and 5 wins. In 2008, Fonseca only got better pitching in 88 innings and had a 4.50 ERA with 9 wins.
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After being drafted 381st overall in ’08, Fonseca made his Major league debut with the Indian’s Short-Season New York-Penn League, the Mahoning Valley Scrappers. Fonseca went 0-1 with a 7.27 ERA in three starts, striking out seven and walking two in 8 2/3 innings. Fonseca was sent down to the Indians Rookie Gulf Coast League Indians where he went 1-0 with one save in eight appearances, all in relief. He posted a 3.00 ERA, fanning 11 and walking four in 12 innings, limiting opposing hitters to a .204 average. In 2009, Fonseca was sent back up to the Scrappers where he pitched in 33 innings and had a 4.32 ERA with 1-2 record.
Before being drafted by the Cleveland Indians, Fonseca spent his 2006 summer with the Bucks where he recorded three saves and a 1.00 ERA.