Luke Duffy grabbed the to the delight of the home crowd. Earlier, Josh Kay cancelled out Connor Woods' opener for Chester.
Macclesfield will now travel to Kidderminster in Saturday''s semi-final.
Meanwhile, Spalding defeated Halesowen 1-0 in a SFL Premier Central semi-final.
Former Hereford winger Yusifu Ceesay scored the only goal of the game.
And in a Southern League Division One South semi-final, Malvern defeated Bishops Cleeve 2-1 after extra time. They will play Shaftesbury in the final.
Finally, Gloucester defeated Poole Town 3-2 so they have reached the Southern League Premier South final.
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