Hey Massakid,
I would need the user you’ve created for me upgraded to the “administrator” level to be able to help with the previous issue about adding pages to the one-page template – right now I cannot see the Theme Options panel because the user account is low-level.
Regarding the latest question: when I click on the menu while being on the front page (http://www.facem.jp/) the website scrolls ot the respective section of the front page – is that so for you as well? The #page-holder-XX suffix which appears when you click on the menu outside of the front page is not a bug – this part of the URL is there on purpose, it tells the browser which part of the front page to scroll to when you click the link ;)
Sincerely,
Andrii / Satori Studio