Hi NeatNit,
I only had a quick glance but in general it looks good.
I still find addr:street=*. The information is already present in object:street=* I guess and you probably have just forgotten to delete the former tag. Similar is probably true for gtfs:addr:housenumber=* which does not add any value if object:housenumber=* is present. Both and source=israel_gtfs look like leftovers from the past but could be deleted together with your updates.
Regarding cable cars and funiculars, these could be included but I understand it if you first want to add/update bus stops and leave the rest for the future.