Changing the Location of Options.php

Found the answer myself as it so often happens once you post for help. You can use the of_options filter to add options without the options.php file.

Example below:

add_filter( 'of_options', function( $options ) {

	$options[] = array(
		'name' => 'Input Text Mini',
		'desc' => 'A mini text input field.',
		'id' => 'example_text_mini',
		'std' => 'Default',
		'class' => 'mini',
		'type' => 'text'
	);

	return $options;

});