What potential issues or conflicts could arise from using the method of including a file in every PHP file on the web server?

One potential issue that could arise from including a file in every PHP file on the web server is the risk of duplication or conflicting function or variable names. To solve this issue, you can use PHP's `require_once` function instead of `include` to ensure that the included file is only included once.

```php
require_once('common.php');
```

This code snippet will include the 'common.php' file in every PHP file on the web server but will ensure that it is only included once to prevent duplication or conflicts.