Save export settings in Media Encoder
No there isn't. 

You could nest each section from your master timeline into it's own timeline, from the in and out points of where your start marker to your next would be. 

That is the only thing I could think of. You could still work off the master timeline provided you dont do any time shifts / move any content up or down the timeline. 

Then you could batch out the sequences to AME and apply the pre-set to all of them at once for export.