When removing the user list and calendar did you include their if/else code?
Code
{if $user_list}
<a href="{ubb url="ubb=showmembers"}">{$lang.USER_LIST}</a> &nbsp;&nbsp;&nbsp;
{/if}
{if $config.CALENDAR}
<a href="{ubb url="ubb=calendar"}">{$lang.CALENDAR}</a> &nbsp;&nbsp;&nbsp;
{/if}

IIRC the userlist and calendar are restricted to guests, and if the if/else code remains and your new links exist within them they would be hidden from guests as well.

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