you can use a small hose clamp around the top of the lifter and pry them out with that. use carb cleaner or wd-40 or something to lossen the varnish build up on the bottom of the lifters.
the bores that are rusty clean them as much as you can the soak the pistions to free them up dont force them or you will damage the block
now for the rest of what you want to do. why waste time and money doing it half. check all the bores if it needs bored do it now while it is apart. save time and money in the long run.