Hey 
So here comes finally the more elaborated answer I promised you two days ago.
Everybody has their own style when it comes to creating a custom. There is no right or wrong, so I will just give you my perspective, after testing some of the modules myself and from the experience I got running around 6 customs in the past.
First of all, you choose the standard “I-add-everything-I-LIKE” philosophy when choosing your modules. While it has a point and is probably the easiest to do, it has its limitations as it eventually always leads to a total overload of desired modules (20+), very dense customs, and often not optimal results.
I used the same analogy for my first customs, but after some extensive testing, I am now preferably using the “I-add-everything-I-truly-NEED” strategy. So what does this mean?
The major subliminal core in the q-store has most of the scripting of the normal full program itself. There is no need to choose a core and then try to add EVERY module in the q-store which you know is also already in the core, because -quite frankly- it is already in the core. Doing this still won’t be “redundant” because these modules will expand this scripting in that area, but you will not add much to your results because the script already contains at least 80% of the scripting of the modules which will give you MORE than good enough results. Otherwise, you will begin to overload your program and with that taking away the focus from the modules you really want to be executing.
So, ONLY add modules, where you really NEED this expansion and increased focus of scripting. Only add modules that you need to get over your sticking points, or that are not inside the major program and would give a nice twist on the custom, or modules that you really really love and want all the scripting you can get in that area. Don’t add all the Romance&Seduction modules to a Khan St4 custom, and do not add all the spiritual modules to an Alchemist St4 custom, just because you fear you will miss out otherwise (You will not!
).
For this strategy to work best, you need some basic understanding of the of the core major sub you are want to build upon, best by your own experience because then you will get a pretty good feeling which modules are already inside the core just by recalling your experiences on this sub and then comparing it to the module descriptions. If in doubt, ask on the forum, or if you like the module a lot, just add it. This can be quite time-consuming though, as you will also need to get a good introspection of what you actually want out of this custom to decide which modules to add or not, instead of just adding all in the same category lol.
So let’s go back to your specific custom.
Most, if not all of the modules you put in the “the obvious ones” category are with utmost certainty in the St4 core itself, especially the ones that were in the q-store since day one. So now it is up to you to decide if…
A. need those to get over your sticking points, B. are not inside the major program and would give a nice twist on the custom, or C. you really really love them and want all the scripting you can get in that area.
There is also D. which would be to add modules to further enhance other modules and achieve a perfect syergy, but for the sake of simplicity let’s leave that out.
So let me give you know my total personal perspective on the module choices:
Let’s start with the modules I would LEAVE OUT and NOT INCLUDE.
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Spiritual Reality Alignment |
No need with Alchemist St4, unless ABC. |
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Spiritual Abundance |
No need with Alchemist St4, unless ABC. |
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The Architect |
Same as above, it is definitely included in the Alchemist core. I personally was running it for quite some time in my Tesla (QL St1/St2) custom, and while it is probably nice to have if you are not running Alchemist anyway, I did not see any profound results that would guarantee it to be a worth a spot in a precious custom. So from there, I left it out and definitely did not regret it. |
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Deus |
I tested this module extensively in various custom, and I came to the conclusion that I am preferring the customs with Omnidimensional inside but without Deus. I noticed that a custom with Deus inside gives me reconciliation earlier than a custom without it, and it is not quite so pleasant to run. I am very confident that Deus is in the mandatory Q core anyway, and this doubling-down, expansion of scripting makes it a bit too much for me. |
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Pragya |
Hermit and I were discussing this module lately, and he had this thought that maybe Pragya was the module that made us both stoic running our Tesla (QL) customs because it enhances the left hemisphere, the logic and understanding part. It would be better to enhance the right hemisphere more profoundly in comparison because we are most foreign to it instead of continuing to strengthen the left with subliminals. And yes, I also believe Pragya is already in the Q mandatory core, so ABC still applies. |
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Okay, now we have that.
So let me construct the custom then 
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Alchemist ST4 |
Self-explanatory. |
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Mind’s Eye |
You seriously considered getting a spiritual custom without this bad boy? Probably one of the greatest programs ever created by subclub (next to many though lol). Absolutely loving it and this will bring you grandiose results in pretty much everything you do. |
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Arcane Mastery |
ABC seems to apply. A good module to further expand upon, especially when I see you are doing so many different spiritual training aspects |
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Awakened Perception |
LOOOOOOOVING THIS MODULE. ABC applies here. This will also help you with the “the scientist in me (who) wants to figure out the building blocks of everything”. You will intuitively pick up on everything! |
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Energetic Development |
ABC probably applies here, even though it is for sure in Alchemist St4. Our life energy / life force is definitely one of the most important things, also especially in regards to executing subliminals. |
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Metamorphosis |
ABC. Will work great in tandem with Energetic Development to really focus further on that part. Or if you decide to leave out Energy Development because it is no priority, this module alone would probably be enough in that regard. |
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Divine Will |
Manifesting seems like one of your top goals, so further expansion might be reasonable |
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Jupiter |
Same as above |
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The Flow |
Not sure if it is in Alchemist (very likely), but it certainly is in Stark. Totally love it and should be worth adding to further expand on that. |
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The Merger of Worlds |
This module would work exponentially well if you include Dream Traveler or Astral Projection because this will open up a whole new gateway to your subconscious mind, intuition, precognitive dreams etc. |
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Tyrant |
Tyrant is my fav module out of them all. I am seeing increased results since adding to my customs and is definitely a must to further expand on. |
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Yggdrasil |
C applies! |
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Gratitude Embodiment |
Gratitude is one of the most important emotions to truly manifest an abundance in life. “How Gratitude Change My Life” STEVE HARVEY EXPLANATION TO SUCCESS (eye opening)
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Chosen of Venus |
If you want to live from the Heart-Space I would definitely include this module and not wait for a SS stack of yours. |
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Spiritual Freedom |
LIVING IN BLISS. Who would not want to expand upon that feeling? I only made great experiences with this module, so it falls in the C category. |
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Blue Skies |
One of the most important modules for pretty much every custom. I don’t believe it is in the Alchemist Core, hence why adding it is absolutely necessary in my opinion. Just ask Hermit what he say about that module
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Dream Traveler |
Now the fun begins. If this is something you are interested in definitely include it. I love this module and with Merger of Worlds, it gives some crazy results. However, if you are not, I would probably substitute this module with Negative Energy Transmutation as this one is a really powerful module too. |
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Inner Gasoline |
If you want to give this module a sexual kick, definitely include it. Probably my seconst fav module. It does exactly what is written on the module description, but really really well
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All-Seeing |
Seems like you want to expand your spiritual abilities, so this might be your best guess. I think that’s why you also added Mystery to the module mix, though I doubt very hard that Mystery will help you with channeling or other spiritual gifts. All-Seeing might to an extend, and it will also greatly improve the scripting of Mind’s Eye. |
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Omnidimensional |
Last but not least, definitely a must module whenever it fits. And it fits wonderfully in this context. See my Deus post. |
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So to summarize, I would propose the following custom:
- Alchemist ST4
- Mind’s Eye
- Arcane Mastery
- Awakened Perception
- Energetic Development
- Metamorphosis
- Divine Will
- Jupiter
- The Flow
- The Merger of Worlds
- Tyrant
- Yggdrasil
- Gratitude Embodiment
- Chosen of Venus
- Spiritual Freedom
- Blue Skies
- Dream Traveler*
- Inner Gasoline*
- All-Seeing
- Omnidimensional
I did not have time to write an extensive comment on every module of your proposed one, but if you have any more questions or would like a comment on another module, just let me know 
Thank you @DarkPhilosopher for all your time and support here on the forum. I greatly appreciate it and I believe I speak for the whole community, when I say we are deeply grateful for all your insights and help you always provide us.