Given the misfire seems to be occuring whilst under load it could be a clogged fuel filter causing starvation. Given the air filter was in a bit of state when was the fuel filter last changed?
I think this year has the "mouse ear" fuel filter its about £12 from Eurocar parts and about 15 mins to fit.
Certainly cheaper than a new injector. Other misfire faults on these can be the injector loom which is quite cheap too.
see here: www.vwaudiforum.co.uk/forum/showthread.php/84119-Intermittent-stutter-or-misfire-PD130-TDI
As always
Mark
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