Lee Mitchell's youngsters were beaten by a Luke Chapman hat-trick at Blackhall Welfare Park.
United's woes were compounded by James Mallender's second half dismissal — his second red card of the season.
Boston (3-5-2): Lowinn Manning; Brogan Horniman, Daniel Fisher, Harry Cranfield; Nathan Stevens (James Mallender 46), Finlay Armond, Jamie Gaukroger (Ben Johnson 70), Ashton Taylor (Elliot Foster 80), Joe Hardstaff; Tom Wilkinson, Will Jackson.