I'm afraid I don't know anything about Llama's but it doesn't sound like she's herself

With our pigs, at the first sign of anything that we can't identify the cause of we normally take their temperature. Any variation from the norm (not sure what the norm is for a Llama) needs treatment. Too high indicates an infection of some sort - normally a broad range antibiotic injection and a few days penned in the shed to observe them. If it's low then I'd probably bring her in too and just keep an eye on her.
Your vet should be able to scan her to confirm if she is pregnant and I'd probably keep her separate from the male for the time being - our sows are always separated from the boar in case he hurts her, or any of the piglets inadvertently.
Sorry I can't be of more help - hope she's feeling better soon.
Karen