I'm not terribly familiar with analyses of gases, but I'm assuming that you can trust the manual in order to do your calculations.
I believe I see your "problem." The manual states that your instrument has a "Validated Concentration Range" of 0.4 to 8 ppm (or 400 ppb to 8 ppm). It states below that, that the instrument's "Detection Limits" are anywhere from 5 to 170 ppb, depending on how long your sample is treated. In your case, you treated your sample for 7 hours, so your detection limit should be close to 5 ppb. For reference, 1 ppb = 1 nanogram per gram or 1 nanogram per mL, etc.
Try reading up on "detection limits" and "limits of quantitation." That will help you to understand what's going on here more easily.
Now, I'm going to "give" you what I think is the "answer" to your problem, because I think that some of what I'm about to say can't be found in a textbook and relies partially on experience. Before I continue, please understand that I don't KNOW for a fact everything I'm about to say, but I DO think that it's insightful.
Okay, for an 8-hour treatment, the instrument CAN see concentrations AT 5 ppb. That's why it's the "detection limit." The instrument can detect a signal at that concentration. However, when you're at the limit of detection, your signal is so small that it's imprecise and, often, not very accurate. Sort of like seeing a car a mile ahead of you on the freeway; you can see that car and know it's a car, but it would be very hard to try and guess the make and model of that car. All you can say is that you saw it, but you can't say much more than that. So, in your case, an ~90 ppb (or 0.09 ppm) result isn't impossible. It is, indeed, possible to detect concentrations that low using your experimental conditions (assuming you performed everything correctly).
Now, the manufacturer uses a term called a "Validated Concentration Range." This isn't a textbook-type term, so we have to guess what they mean by this. Typically, something that has been "validated" has been proven accurate by comparing the results with a reliable and approved method/instrument. So, to me, it sounds like their "validated concentration range" is the range of concentrations on their instrument that they have proven to give accurate results (as long as the instrument is used as directed). Concentrations above or below that range can still be measured; they just may or may not be accurate.
So, the instrument is probably SENSITIVE enough to see concentrations as low as 5 ppb. It was, therefore, sensitive enough to measure your 90 ppb sample. However, the instrument hasn't proven to be acceptably accurate for a concentration that low.