The std. deviation of your 2 asset portfolio can be determined by applying the formula below:
$$\sigma_p= (Variance_aW^2_a+Variance_bW^2_b+2W_aW_b(cov_{ab}))^.5 $$
where W are the weights, sigma is the standard deviation, and cov is the covariance between the asset returns. (From your covariance matrix, the variance of asset a is 0.09; Variance of asset b is 0.04 and Covariance of a,b is 0.018).
Determine the weights of each asset by multiplying the position size (150) by the corresponding stock price and divide it by the the total portfolio value.
Since your covariance matrix is annualized, turn this into a 3 day volatility by multiplying the volatility by $$(3/250)^.5$$
Note: This assumes 250 trading days in a year
Multiply this 3-Day volatility by the 99% critical value of a t-distribution with 5 degrees of freedom, which is 3.365
As you mentioned, the distribution is a t-dist which is similar to a normal distribution but more peaked. As such, the distribution can be described by the volatility and the degrees of freedom.