You could try running an R profile to see if there's some R code being executed in the main session that's causing the lag. Try running:
Rprof("rstudio-trace.Rprof")
Then, work in the IDE for a bit until the lag occurs. After that, call
Rprof(NULL)
and then share the contents of that file, or try interpreting summaryRprof("rstudio-trace.Rprof")
to see if anything stands out in there.