Not sure if there is specific to my environment but the following code does not show the same on my machine. I have tested this on Windows and Linux with the same results.
https://plot.ly/ggplot2/time-series/#facet_grid-time-series-by-year
If you can see, the Labels for YEAR are duplicated and the X Axis Zoom does not zoom to specific Dates/Times.

It seems to work fine in the Online Example. Can this be due to a code change made recently?