[8] Neely had another run with the national association's men's under-20 soccer team as an assistant under head coach Dale Mitchell in 2005.
[13] The following season he was named the academy's junior team head coach in the reserve division of the Canadian Soccer League.
[21] Following his resignation from Toronto, he shortly after secured a position with league rivals Vancouver Whitecaps in the winter of 2012 as the club's head of player management and advancement.
[22] In 2013, Neely was named the head coach for Vancouver's academy team in the American-based USL Premier Development League.
[32] In 2018, he returned to the national governing body in the capacity of manager of coach education under the auspices of director of development Jason de Vos.
[33] After a three-year tenure with Canada Soccer, he returned to the western province of British Columbia as the technical director for the local side South Delta United.
[34] In 2022, he joined the coaching staff of James Merriman as the technical director for Pacific FC in the national Canadian Premier League.