I think most of OP's questions have been answered already, they just need to decide.

After your trek, I'd go back to Lima and from there you can fly to Iquitos, flying back to Lima a few days before your international flight.

Good day

Thank you. I know Kja already confirmed about taking a taxi from Cusco to Ollantaytambo BUT we thought there might be a another quicker way from Lima to Ollantaytambo to save time.

Kja, re your answer:-
How can we possibly answer that? We can't tell you whether to eat apples or oranges -- it's your trip, you are debating options that are incredibly different, and only you can make a choice. ??
I didn't say you must decide for me I just needed input and although you gave your opinion, there might be other readers who can give their opinions as well.
In the end, I know it is our decision. I'm really not that uneducated - let's leave it there.
How can we possibly answer that? We can't tell you whether to eat apples or oranges -- it's your trip, you are debating options that are incredibly different, and only you can make a choice.

Mlgb, re Tahuayo Lodge - Thanks I will check it out.

There is no quicker way to Ollantaytambo than via Cusco. You have to fly to Cusco and get a taxi, bus or collectivo to Ollantaytambo. If you want to go straight to Ollantaytambo, book taxidatum.com or ask your accomodation to arrange transfer., it is by far the easiest way. If you want to save cash, get a taxi to the collectivo station and wait there for the collectivo to fill up. A fun way to go but not if you are tired and jet lagged!

If you are trekking one of the major trails soon after arrival then most trekking companies will advise/insist on staying a min 2 nights in Cusco prior to the trek to ensure adequate acclimatisation. If doing that I would definitely consider Diamox. Many people suggest 2-3 days acclimatisation prior to strenuous exercise. Than may be true to ward off AMS but in reality many people need longer before they are not breathless climbing steps etc.

One alternative solution to your Amazon jungle dilemma is to forget about Peru and head to Bolivia. You seem to have enough time and accessing the Amazon could work out a lot cheaper. We have spent time in many different rainforests around the world and Madidi NP, near Ruurenenbaque was by far the best experience ( although I haven’t been to the Peruvian Amazon). It is at the upper reaches of the amazon basin so doesn’t have the wide rivers but it is in pristine condition. We spent 4 nights there and loved it. There are a couple of entries about our time there towards the end of the Bolivian section of our blog @ https://accidentalnomads.com/category/bolivia/

You would need to fly from Cusco to La Paz, itself a fascinating city. More travelling involved but I think worth considering.

Hi Thank you I appreciate. Just what I wanted to hear. regards
Mimmie

I apologize if my tone seemed critical -- I like to be helpful, and was frustrated that there seemed no way to be constructive or responsive to your requests. I'm glad you got advice you found helpful and hope you enjoy your journey.