What you describe seems pretty good given your machine limitation with no changer, but maybe there are some things to try.
For the first operation instead of using toe clamps make a top plate about 3/4" thick that bolts the ttable with spacers. Then you slide your stack of parts under and clamp them with four setscrews though the top plate. This means you need a cover plate on the stack to avoid setscrew marks but it eliminates the bowing you get with toe clamps and if you also bolt a back and side stop for the stack to push up against it speeds up your loading.
For the second operation is it possible to screw more than one part on a large fixture plate? This can reduce the number of tool changes per part.
Also for the second operation make a subplate that the fixture plate attaches to and have two fixture plates. This way you can reload one fixture plate while one is being machined rather than having the machine idle during loading.