Vlachos started his coaching career from AE Vouliagmenis in 1993. In 1994 he was the manager of Panathinaikos U20, where he was promoted the following season as the assistant manager of the men's team. In 1999 he coached Kavala until December and then Skoda Xanthi, where he remained for a season. In 2000 he took over as coach of Panachaiki and in 2001 of Apollo Kalamarias. In 2002 he had a brief spell at Fostiras and in the same season he continued in Kallithea. In 2003 he took over Ionikos, from which he left in 2005, to continue in OFI, while in 2006 he had a short spell at Panionios and after the end of his term there, he retired for three years due to family obligations.
