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I followed the seo guide and bbcode is working perfectly now on the default template. But it made no difference on the modified one. I uploaded the original bbcode.php to the modified template but still did not work. So uploaded the one from the default Kunena template and now the modified template bbcode is working perfectly too. Hope this does not affect anything else. Site seems slower now but it may be my imagination.

I am using Kunena menu with the modified template.

That explains a lot!

Looks like your "modifications" (whatever they were) are conflicting with the way that Kunena is supposed to run.

When people are faced with this kind of situation, sometimes the best thing to do is to re-install Kunena again and see how it works the way that it was "straight out of the box" ... and then reapply any "customisations" one at a time, being very careful to make sure that everything continues works the way that it's supposed to. We can provide some help, some guidance, with customising things but, at the end of the day, it's your site, your customisations and - forgive me for being blunt - largely your problem.

Good to hear that it's all working. Performance problems? Who knows. Compare performance to "vanilla-flavoured Kunena" and see if there's a difference. A contributing factor to performance might also reside with your webhost. Just a couple of things for your to consider.

Many of the problems I had were because of the Kunena template I bought. I think they were blind folded when they created it.
Seems free things are much better than paid ones.

Thank you for the help and your patience.