Removing /index.php/ from permalinks breaks site

I seem to be having and issue with Permalinks, I have installed wordpress and added in both BuddyPress and bbPress which has set my current permalink format to:
/index.php/%year%/%monthnum%/%day%/%postname%/
Currently the only broken page with this setup is the register page.

I am trying to remove /index.php/ from my urls and hence tried to change permalinks to:
/%year%/%monthnum%/%day%/%postname%/

Sadly though once ive done this all my links break on the site and my individual pages and the forums goes missing and I am unable to add new posts or pages as now the REST API is broken as well

I have tried reverting to the default theme and disabling all my plugins but that has not resolved the problem

I cleared my .htaccess file and resaved permalink settings to regen the file and while it still is not working this is what the file generated:

# BEGIN WordPress
# The directives (lines) between "BEGIN WordPress" and "END WordPress" are
# dynamically generated, and should only be modified via WordPress filters.
# Any changes to the directives between these markers will be overwritten.
<IfModule mod_rewrite.c>
RewriteEngine On
RewriteRule .* - [E=HTTP_AUTHORIZATION:%{HTTP:Authorization}]
RewriteBase /
RewriteRule ^index\.php$ - [L]
RewriteCond %{REQUEST_FILENAME} !-f
RewriteCond %{REQUEST_FILENAME} !-d
RewriteRule . /index.php [L]
</IfModule>

# END WordPress

Im lost at what else I could do to get this working any help is appreciated

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