Hutchison was drafted by the Toronto Blue Jays in the 15th round of the 2009 Major League Baseball Draft from Lakeland High School in Lakeland, Florida. He made his minor league baseball debut with the Auburn Doubledays in 2010, and was later promoted to the Class-A Lansing Lugnuts. In 68 ²⁄₃ innings that year, Hutchison pitched to a 2–3 record with a 2.49 ERA and 63 strikeouts. He began the 2011 season with Lansing, and later made starts with the High-A Dunedin Blue Jays and the Double-A New Hampshire Fisher Cats. In 2011 Hutchison posted a record of 14–5 with an ERA of 2.53 and 171 strikeouts over 149 ¹⁄₃ innings.

Before the 2012 season, Baseball America ranked Hutchison as the Blue Jays' ninth best prospect. He made 3 starts with New Hampshire in 2012, and posted a 2–1 record with a 2.16 ERA.

The Blue Jays purchased Hutchison's contract from the Fisher Cats on April 19, 2012. He made his first MLB start on April 21, 2012 against the Kansas City Royals in Kansas City, pitching 5 ¹⁄₃ innings and yielding 5 earned runs, with 4 strikeouts and 3 walks in a 9–5 win. After making 11 starts, Hutchison was placed on the 15-day disabled list with a right ulnar collateral ligament sprain. Hutchison was later transferred to the 60-day disabled list, and on August 7 it was announced that he would require Tommy John surgery to repair his injured elbow. Hutchison posted a 5–3 record with a 4.60 ERA and 49 strikeouts over 11 starts (58 ²⁄₃ innings) in his first professional season.

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