Most data tends to be stored in computers or at least in retrieval systems linked to some sort of mechanical schema. For this reason a seemingly random organization will come off looking sloppy rather than intimidating. A cipher based on a really big computer algorithm may be effective but is rather tedious. A far better scheme would be to use some arcane formula as the basis for a more esoteric encryption code. This type of lab does well with a sterile, square edge sort of look.
Antique labs work well with either organizational scheme.
High order systems can be pulled off as indicated by the library in The Name of the Rose. However, one generally tends to think of antique labs as working better with chaos. In general secrecy and intimidation are your best allies here. However, there will always be annoying kids or snooping government agents who find out about your research and just have to come for a look. Now, there is a certain amount of pride that you will feel when someone hunts you down and the almost overwhelming tendency will be to gloat about your new cyborg design, zombifying virus, etc.