The idea of connecting the internet in Japan for the foreigner

 A well informed people about the net seems to be talking over the telephone, using the voice from Net cafe, hotel, FON Spot, Free Spot etc as a messenger of Skype or MSN and Yahoo. Because, these are far more inexpensive than the roaming service.

The information of my experience in Germany is shown bellow.

http://electronicsamateurradio.blogspot.com/2010/04/my-nokia-cell-phone-e61-n73-with-gps.html

 There is the special and restricted environment in Japan.
The charged FON is now not available in Japan,
so you can use these FON spots by guest account, certainly your own FON account, free of charge.

Free Spots in Nagasaki

● Free Spot

We strongly recommend the Nagasaki International Cruies Ship Terminal
who prepared good and free access point in the terminal.
Free Spot Public 09:00-18:00 http://www.kouenryokuchi.or.jp/matsugae/
http://www.freespot.com/users/map_e.html

Two FON spots are controlled by us, and free.
FON Free Spot 1, 2 are available for 24 hours by us.
If you have any trouble or questions, please send us an e-mail.
log_k2010@yahoo.co.jp

The Internet will be free, but you may have difficulties, paying for some service. membership etc.
Net Cafe 1 :  We have not sufficient information.
Net Cafe 2 :  http://www.free-space.jp/shoplist/hamanomachi/index.html
Net Cafe 3 :  http://www.cybac.com/information/hamamachi/access.html
Net Cafe 4 :  http://www.planet-cafe.jp/stores/store09_nagasaki.html