One simple adjustment to your current graphic production would be, instead of producing all of the elements of the box-plot (even the minimalist Tufte style one), would be to produce a line chart connecting the summary statistics that the box plot is displaying (median, quartiles, mean, outer hinges, whatever). Below is an example displaying the 90th and 99th percentile of a simulated distribution of 50 observations over 100 weeks.
This connecting of the lines allows you to make the temporal connections between the summary statistics between weeks much easier, and reduces the data to ink ratio of the plot. Even Tufte in the Visual Display of Quantitative Information has an example where connecting the lines in a display allows one to discern periodicity in a temporal series that would be very difficult to see in a scatterplot display (and I assume the same problem would extend to the box-plot display).
What exactly you should display in the lines I believe would take more insight in the nature of your data and what you are interested in (and could change as the nature of your data changes over time as well). To get a broad sense of the distribution I believe different quantiles (including the median) can be informative. Although it may take some experimentation to see where informative quantiles lie from week to week (in this display the 99th percentile is quite noisy).
Line charts like this could also be extended to different statistical summaries (such as the skew of the distribution), although I believe the quantiles as a first run are the most informative. Also if you are interested in identifying outliers you may want to consider including the dots of outliers (defined in whatever way suits your fancy) in these same line plots. There was an interesting discussion of outliers for skewed data in this question on the site, Is there a boxplot variant for Poisson distributed data?, and the questions tagged with control-chart I believe would be applicable.
Even though from just this you can probably imagine generating a multitude of different lines on one plot, it is fairly easy to plot too much information in one graphic. A rule-of-thumb I try to abide by is that a plot should not have any more than 4-5 data elements (where here a data element would be a line). Even that is frequently too many. To attempt to get around this problem, try to make a consistent template, in which the axis of the plots are consistent, so you can make accurate comparisons between plots. Or if your software allows it, make a series of small multiple plots (again using the same axis for all plots). Then even if you say have the outer-hinges and outliers on one plot and the median and quartiles on another you may be able to discern patterns between those two plots. And then you can combine the outliers and the quartiles into one plot for more scrutiny if you think you see a pattern between them.
EDIT: As an example of the smoothing that @whuber is talking about here is a similar plot to that above (generated by a simulated process in the exact same manner), except that a loess smoother is applied to the lines.
I couldn't bring myself to not plot the original data, but I just made the smoothed lines thicker (and gave them color) to bring them to the foreground of the image, and left the original lines thinner and a light grey color so they are merely in the background of the image (and hence are not as distracting). The smoother allows one to assess general trends that can be obfuscated by the variance of the series.
Tukey has other suggestions I did not display here, such as plotting the alpha hull of all the observations (and labeling those observations that make up the vertices). Some more food for thought.
