The agency will carry out the consultation to determine the best way to carry out the requirements of the directive, approved by the European Parliament on 13 January.
PSD environmental policy adviser Grant Stark said the directive would have a greater impact in the amenity sector than the Placing of Plant Protection Products on the Market Regulation.
Through the directive, member states must produce national action plans that will reduce the use of pesticides.
"We will be going out and speaking to people in the industry over the next two years and asking them what they think of the measures we suggest," Stark said.
The directive is expected to be published by late spring or early summer, and member states would then have two years to put in place national implementing legislation.
"There will be challenges, and while those using pesticides may think there is a precautionary system in place (in the UK) at the moment, that is not to say we shouldn't ratchet that up for the future," added Stark. "There are also lots of opportunities to improve standards. The measures need to be proportionate and practical but deliver change in the long term."