A new WWTP would require further consents and Mr Lambly said it was including it in this current application in the event they decide to go ahead with building their own.
He said Affco was still in direct talks with council about trade waste fees and it would need to wait until the council's new trade waste bylaw is developed to make a decision.
The new bylaw is due to be drafted and consulted on later this year and be implemented in late 2017 before the new plant is commissioned.
Affco says odour beyond its premises, the major factor in the consent application, is expected to be "no more than minor" with the odour management procedures it has proposed.
It said no longer having fellmongery operation and the associated discharges to wastewater "has significantly reduced the potential for odour discharges".
"We've done quite a bit of remedial work on the plant (to reduce odour)," Mr Lambly said.
Records show it received 36 odour complaints in 2014/15 year to June.
Horizons issued an abatement notice to cease causing objectionable odour and this remains in place.
There were eight complaints the following year (six substantiated) but the application said there had been none since.
Mr Lambly said Affco has done some initial consultation with neighbouring residents.
Affco says it contributes at least $10 million to the local area in terms of labour and contractors onsite.
Public submissions on the consent application are open until June 23.
A copy of the consent application can be viewed at www.horizons.govt.nz/managing-natural-resources/consents/affco-nz-limited-whanganui