If you have a line in, you can calibrate the output from the headphone jack with a loopback cable.
The point of using a gated measurement is that you are removing the effects of reflections. Yes, it does affect the low frequency measurement, but it is invalid due to room effects anyway. So, if you do not gate your measurement in a room, you either have to use near field measurements or do outdoors (either away from surfaces or using ground plane approach).
Since many of us do not have access to anechoic rooms, we have to make compromises. Usually these compromises mean that exact duplication of other's results is improbable. As I have indicated, this means understanding your room environment and that comparisons are relative to it. As an example, the Dayton FR graph for the says that the response under 450 Hz was done near field. This is because the lower frequency response is more affected by the room conditions and a near field measurement is how they chose to compensate for them.
Aside from the floor/ceiling artifacts, wall reflections can impact the accuracy of your measurements. So, if you measure in a corner, you will get more reflections and the resulting measurements will be less accurate.
One other factor for DIYers is measurement consistency. Unless you have a dedicated measuring equipment and space, you need to re-establish the measurements conditions consistently. This means establishing a baseline and checking against it every time you measure. This means documenting positions, distances, computer and amplifier settings to be able to produce comparable results between design sessions. Otherwise, you will not even be able to compare your own results meaningfully.
While you are wise to plan for design iterations, you will save time and materials (and stress) by improving your understanding of acoustics and being consistent.
Enjoy!
Ww