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Your problem could indeed, be the new pump. While the Taco can pump against a higher head, the B&G has a greater flow capacity. Calculate the head and GPM of your system and find your duty point on the charts to see which pump is the correct one.

Good call! In the old days, they installed orifice plates in the upstairs radiator spuds on gravity systems because the hot water was buoyant and wanted to go there first. When you convert to a pumped system, the orifice plates get moved to the downstairs radiators.
I’ve never seen this around here, but Dan talks about it in his books.

I am a manufacturer's representative for this unit. I won't disclose what company I work for. All work must be done by a licensed professional. under no circumstances should you do any work on this unit if you are not a licensed tech. Here's what is likely going on..

The delayed ignition is typically caused by a fuel supply issue at the unit. The EL series should have no more than a .5" W.C. pressure drop upon ignition. If the pressure drop is greater, the combustion chamber fills with fuel and does not ignite until a proper mixture of air and gas is achieved. By the time it ignites there is an abundance of fuel in the chamber leading to a delayed ignition (read small explosion) within the heat exchanger.

Have the tech check the pressure drop upon Igniton, and adjust the regulator if necessary.

Secondly, the location of the flue sensor and ECO has likely deteriorated from exhaust condensate. the exhaust elbow assembly including the ECO and Sensor should be replaced. it could also be possible the field connection board located underneath has been compromised as well.

Perform a combustion test analysis and make sure all values are within spec.