Well, it depends. To paraphrase a long-dead Brit, what's in a name anyway?
If the only difference between an upgraded Essence and an SC standard is the letters in the middle of the serial number, shouldn't they be worth the same? What's important is to understand the features of the instrument and how they compare to what you want. You can take nothing for granted.
I could order an MK bass and pay for the upgrade to Series 2 electronics. The casual observer might see the CVQs, call it a Series 2 bass, and value it as such. In reality, it might not have the deluxe neck laminates, extra body laminates, continuous wood backplates, side LEDs, or gold plated hardware that all factor into the difference in price/value between the two instruments.
There was an MK deluxe recently for sale here that was ordered already prepared for a Series electronics upgrade. It looks like it already has Series 1 electronics because it has the humcanceller and the canon jack. An ignorant or unscrupulous seller could have passed this off to most buyers as a Series 1 bass, and you wouldn't know the truth without either the data from the wood card or a physical inspection of the instrument.
It just comes down to knowing what is for sale so that you can value it appropriately on your own scale.