I have an InputStream of a file and i use apache poi components to read from it like this:
POIFSFileSystem fileSystem = new POIFSFileSystem(inputStream);
What exactly do you mean with "cache"? Do you want the different POIFSFileSystem to start at the beginning of the stream? If so, there's absolutely no point caching anything in your Java code; it will be done by the OS, just open a new stream.
Or do you wan to continue reading at the point where the first POIFSFileSystem stopped? That's not caching, and it's very difficult to do. The only way I can think of if you can't avoid the stream getting closed would be to write a thin wrapper that counts how many bytes have been read and then open a new stream and skip that many bytes. But that could fail when POIFSFileSystem internally uses something like a BufferedInputStream.