The classic tab-delimited file is usually my typical choice for the intermediate format, but reading and writing (although simple) these gets repetitive and more complicated for more complex data structures. I finally looked into alternatives (something I clearly should have done awhile ago) and came across Storable.
Basically, it allows you to save/open any perl data structure to/from a file.
It is very easy to use:
use Storable;Check it out if you have never used it before.
#Reference to any data structure
#later in same or different script
$new_data_ref = retrieve('my_storage_file');