CEFN Druids gained a creditable home draw with FK Trakai, but allowed the Lithuanians to score a late away goal which could prove crucial.
James Davies put the Ancients in front from a Jordan Evans cross in the 48th-minute but, four minutes from time, Donatas Kazlauskas grabbed the equaliser for the visitors.
Bala Town were given a first-half roasting by Tre Fiori which virtually put paid to their hopes of progession. An own goal from new signing Anthony Miley after just seven minutes put the San Marinese side in front and they added two more inside seven first half minutes from Giacomo Pracucci and Mirco Vassallo.
The match was interrupted early in the second half by a partial floodlight failure and the hosts had Pracucci red carded 10 minutes from time, but held on to their three-goal cushion ahead of the second leg although Ian Sheridan hit the woodwork for the Lakesiders in the last minute of stoppage time.