What about decompression? Are we already I/O bound? Compression is irrelevant in many cases, where you can precompress static content.
alex@martha:~/src/zlib$ du -sh $TESTFILE
197M /home/alex/src/enwiki-20141106-pages-articles-multistream-index.txt.gz
alex@martha:~/src/zlib$ LD_LIBRARY_PATH=./ time ./minigzip -d <$TESTFILE >/dev/null
3.36user 0.03system 0:03.87elapsed 87%CPU (0avgtext+0avgdata 1632maxresident)k
8inputs+0outputs (0major+90minor)pagefaults 0swaps
alex@martha:~/src/zlib$ LD_LIBRARY_PATH=./ time ./minigzip -d <$TESTFILE >/dev/null
3.34user 0.04system 0:03.76elapsed 90%CPU (0avgtext+0avgdata 1704maxresident)k
0inputs+0outputs (0major+91minor)pagefaults 0swaps
alex@martha:~/src/zlib$ cd ../zlib-ng/
alex@martha:~/src/zlib-ng$ LD_LIBRARY_PATH=./ time ./minigzip -d <$TESTFILE >/dev/null
12.20user 0.04system 0:13.63elapsed 89%CPU (0avgtext+0avgdata 1576maxresident)k
264inputs+0outputs (1major+86minor)pagefaults 0swaps
alex@martha:~/src/zlib-ng$ LD_LIBRARY_PATH=./ time ./minigzip -d <$TESTFILE >/dev/null
12.15user 0.08system 0:13.58elapsed 90%CPU (0avgtext+0avgdata 1428maxresident)k
0inputs+0outputs (0major+84minor)pagefaults 0swapsIn stock zlib this codepath is only used if you defined Z_SOLO, but in zlib-ng it is the default unless you run configure with --zlib-compat (or otherwise set the correct defines).
Please retest with the updated commit, or even better with --zlib-compat if you want to get close to an apples-to-apples comparison.
EDIT: PS: This goes to show that minigzip can not really be used as a reliable benchmark, since actual applications linking to the library could be using it differently (for better or worse).