As hosts, Malta qualified directly for the final tournament, while Germany received a bye to the elite round as the side with the highest competition coefficient.
The draw for the qualifying round was held on 5 December 2012 in Nyon, and matches took place between 21 September and 19 November 2013.
[1] A total of fifty-two participating teams were divided in two draw pots based on the UEFA Under-17 coefficient ranking.
Before the draw UEFA confirmed that, for political reasons, Armenia and Azerbaijan would not host the mini-tournament if they are drawn in the same group due to the dispute concerning territory of Nagorno-Karabakh, with the same rule applying for Georgia and Russia due to the dispute regarding the territory of South Ossetia.
† On 21 October 2013, the match between Ukraine and Sweden to be played at the ARVI Football Arena in Marijampolė was postponed to the next day due to heavy rain.