Two frustrations with R’s default behaviour.

EDIT:  In response to this post I have had good suggestions, both in the comments here and on reddit in /r/statistics. Thanks to all!

I use R every day.  I can think of very few times when I have booted up my computer and not had an instance of R or RStudio running.  Whether for data exploration, making graphs, or just fiddling around, R is a staple of my academic existence.

So I love R, but there are a few things that drive me nuts about its behaviour:

1. Plotting a large data.frame produces unreadable plots.
2. Read and write.csv don’t behave the same with respect to row names.
3. stringsAsFactors isn’t default.