It's possible that the problem is due to a problem in rhandsontable, or an interaction between rhandsontable and shinyapps.io, but it's hard to tell which without I know it's not easy to do so with this particular application, but it would really help to have a reproducible example. That would let us get in there with a debugger and figure out what's going on.
Here's information about how to do that:
If you're familiar with debugging JavaScript in the browser, you could put a breakpoint at rhandsontable.js:215, and when it gets there, see if there are any weird values that are being passed to onInputChange
.
Other possibilities include updating your version of rhandsontable.
One more question: do you have a reliable internet connection?