Use them to build up a waterfall of some sorts for the new pond maybe?? They could also be used to line the waterfall or running stream part of your pond if you have one. If not add BOTH =) Just an idea. When using stone to line a running brook or similiar part of your pond just carefully place the stones on top of your rubber liner,as close together as you can piece them. Than get expanding foam, we usually use black foam so its not as noticable, fill all the gaps between the stones with the foam. Cut off the excess foam when its dry. This helps keep the water running over the top of the rocks rather than undernieth them.
If the stone is very light in color you may want to use the normal tan colored foam you can get at any home depot or lowes, if dark i highly recommend a black foam.Which can possibly be found at home depot or lowes. If not try a local pond supplier, they may very well have it.
Water running over top of stones is one of the best parts of a pond IMO. Good luck with your project. Even if ya dont use my idea KEEP THE STONES =) Stack them behind the shed or somewhere until you find a use for them. You know eventually you will.

This might be a good question for the landscape design forum, since you are asking a "design" question really, rather than a stone question.

Good luck