The Alignment has a goal of "improving" the human race though genetic manipulation and has been spending centuries doing experiments. Those experiments have both been in secret and in public.
We now have the Star Lines and it is members of those varioius lines that comprise the leadership of the Alignment and thier major poxy operatons (The RF and moles in other systems) The Alignment has been operationg in the shadows by choice and design.
Recall that Detweiler and his acolytes moved to Mesa specificaly to get out from under the resetrictions of the Beowulf Code and advance the research into creating the superior humans who would -by right of intelegence and their own wisdom and philosophy take over and lead humanity. Mesa, as it has been shown in the series whenever it has come up, is best known for two things.
One is Manpower. Manpower is at best a very cynical expression of genetic manipulation for "profit" and the production and sale of genetic slaves crafted to specification for various "jobs" Some of that is adaptation to enviornments hostile or at least difficut for humans and a lot of it is outright designing humans and their sale for almost any purpose you can imagine. It is ONE company which is a major if not the major owner of the system.
The other is with various TransStellars of repugnant reputations which will do just about anything to make a profit and acrew power. Detweiler was very careful to use both to cover the real intent and work of the Alignment which is that whole uplift of humanity in terms both of actual physical changes/inhancements and to set the Star Lines overe humanity but at a remove such that nobody is given a target which can sucessfully attack. Along with the genetics manipulation there is a compleat moral and ethical system. Call it a cynical strangulation of the Beowulf Code.
The Alignment is shown to think in terms of itself and "normals" It has a deeply entrenched Cast system with the Alpha's at the summit layer. Normals are not even cattle for them to be used. They are at best a source of raw materials and expendable.
Manpower and Mesa provided the infrastructure for genetic reseaerch using their creation of genetic slaves as a cover. Manpower and Mesa were the target being set up along with the initial place to continue the Detwiler research.
The RF is anti-slavery. Apparently they are also not violating the Beowulf Code. Not in open practice, but they are pushing the edges of the envelope. As with Mesa, the original RF systems are actualy controlled by Star Lines. We don't see any blatant things like Albrects's "sons" being adaped clones but the Star Lines are in control.
Darius is also being presented as a non-slave world. The difference- the general population of Darius doesn't know they are slaves. They are what the Seccies on Mesa were supposed to be- lower classes of citizens. Very carefully designed lower classes who are taught and infused from birth (or decanting if you will) that their place is in the service of the Alignment.
So, no, The Alignmente is just getting a slower start on the pushing of it's infection on the rest of humanity. They do have morals and ethics but only from the point of view that what they want is what is right for everybody else and all genetic manipulation is good. The serf is a serf and should be a serf- is made to be a serf and the Alignment will assure that this continues. With the Alphas at the pinnacle of power, education, justice, philosophy. Creation of the Natural Order as invisioned by Detweiler.
How could that possibly be wrong.....